[{"has_accepted_license":"1","year":"2019","oa_version":"Published Version","article_type":"original","publication_identifier":{"issn":["2041-1723"]},"external_id":{"pmid":["31358762"],"arxiv":["1909.07382"]},"scopus_import":"1","user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","date_updated":"2023-02-23T13:47:59Z","_id":"9060","abstract":[{"text":"Molecular motors are essential to the living, generating fluctuations that boost transport and assist assembly. Active colloids, that consume energy to move, hold similar potential for man-made materials controlled by forces generated from within. Yet, their use as a powerhouse in materials science lacks. Here we show a massive acceleration of the annealing of a monolayer of passive beads by moderate addition of self-propelled microparticles. We rationalize our observations with a model of collisions that drive active fluctuations and activate the annealing. The experiment is quantitatively compared with Brownian dynamic simulations that further unveil a dynamical transition in the mechanism of annealing. Active dopants travel uniformly in the system or co-localize at the grain boundaries as a result of the persistence of their motion. Our findings uncover the potential of internal activity to control materials and lay the groundwork for the rise of materials science beyond equilibrium.","lang":"eng"}],"date_published":"2019-07-29T00:00:00Z","file":[{"file_name":"2019_NatureComm_Ramananarivo.pdf","creator":"cziletti","file_size":2820337,"checksum":"70c6e5d6fbea0932b0669505ab6633ec","date_updated":"2021-02-02T13:47:21Z","access_level":"open_access","content_type":"application/pdf","relation":"main_file","file_id":"9061","date_created":"2021-02-02T13:47:21Z","success":1}],"article_number":"3380","article_processing_charge":"No","issue":"1","arxiv":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":10,"file_date_updated":"2021-02-02T13:47:21Z","oa":1,"publication_status":"published","type":"journal_article","author":[{"last_name":"Ramananarivo","first_name":"Sophie","full_name":"Ramananarivo, Sophie"},{"full_name":"Ducrot, Etienne","first_name":"Etienne","last_name":"Ducrot"},{"orcid":"0000-0002-7253-9465","id":"8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d","first_name":"Jérémie A","full_name":"Palacci, Jérémie A","last_name":"Palacci"}],"day":"29","title":"Activity-controlled annealing of colloidal monolayers","citation":{"short":"S. Ramananarivo, E. Ducrot, J.A. Palacci, Nature Communications 10 (2019).","ama":"Ramananarivo S, Ducrot E, Palacci JA. Activity-controlled annealing of colloidal monolayers. <i>Nature Communications</i>. 2019;10(1). doi:<a href=\"https://doi.org/10.1038/s41467-019-11362-y\">10.1038/s41467-019-11362-y</a>","apa":"Ramananarivo, S., Ducrot, E., &#38; Palacci, J. A. (2019). Activity-controlled annealing of colloidal monolayers. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-019-11362-y\">https://doi.org/10.1038/s41467-019-11362-y</a>","chicago":"Ramananarivo, Sophie, Etienne Ducrot, and Jérémie A Palacci. “Activity-Controlled Annealing of Colloidal Monolayers.” <i>Nature Communications</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1038/s41467-019-11362-y\">https://doi.org/10.1038/s41467-019-11362-y</a>.","ista":"Ramananarivo S, Ducrot E, Palacci JA. 2019. Activity-controlled annealing of colloidal monolayers. Nature Communications. 10(1), 3380.","ieee":"S. Ramananarivo, E. Ducrot, and J. A. Palacci, “Activity-controlled annealing of colloidal monolayers,” <i>Nature Communications</i>, vol. 10, no. 1. Springer Nature, 2019.","mla":"Ramananarivo, Sophie, et al. “Activity-Controlled Annealing of Colloidal Monolayers.” <i>Nature Communications</i>, vol. 10, no. 1, 3380, Springer Nature, 2019, doi:<a href=\"https://doi.org/10.1038/s41467-019-11362-y\">10.1038/s41467-019-11362-y</a>."},"doi":"10.1038/s41467-019-11362-y","ddc":["530"],"keyword":["General Biochemistry","Genetics and Molecular Biology","General Physics and Astronomy","General Chemistry"],"language":[{"iso":"eng"}],"pmid":1,"date_created":"2021-02-02T13:43:36Z","month":"07","extern":"1","intvolume":"        10","status":"public","publication":"Nature Communications","quality_controlled":"1","publisher":"Springer Nature"},{"status":"public","department":[{"_id":"BeBi"}],"quality_controlled":"1","publication":"IASS Symposium 2019 - 60th Anniversary Symposium of the International Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th International Conference on Textile Composites and Inflatable Structures, FORM and FORCE","isi":1,"publisher":"International Center for Numerical Methods in Engineering","publication_status":"published","date_created":"2021-03-21T23:01:21Z","_id":"9261","date_published":"2019-10-10T00:00:00Z","abstract":[{"lang":"eng","text":"Bending-active structures are able to efficiently produce complex curved shapes starting from flat panels. The desired deformation of the panels derives from the proper selection of their elastic properties. Optimized panels, called FlexMaps, are designed such that, once they are bent and assembled, the resulting static equilibrium configuration matches a desired input 3D shape. The FlexMaps elastic properties are controlled by locally varying spiraling geometric mesostructures, which are optimized in size and shape to match the global curvature (i.e., bending requests) of the target shape. The design pipeline starts from a quad mesh representing the input 3D shape, which defines the edge size and the total amount of spirals: every quad will embed one spiral. Then, an optimization algorithm tunes the geometry of the spirals by using a simplified pre-computed rod model. This rod model is derived from a non-linear regression algorithm which approximates the non-linear behavior of solid FEM spiral models subject to hundreds of load combinations. This innovative pipeline has been applied to the project of a lightweight plywood pavilion named FlexMaps Pavilion, which is a single-layer piecewise twisted arc that fits a bounding box of 3.90x3.96x3.25 meters."}],"month":"10","article_processing_charge":"No","page":"509-515","publication_identifier":{"issn":["2518-6582"],"isbn":["9788412110104"]},"date_updated":"2023-09-08T11:21:54Z","language":[{"iso":"eng"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","scopus_import":"1","external_id":{"isi":["000563497600059"]},"year":"2019","oa_version":"None","type":"conference","author":[{"last_name":"Laccone","first_name":"Francesco","full_name":"Laccone, Francesco"},{"full_name":"Malomo, Luigi","first_name":"Luigi","last_name":"Malomo"},{"id":"2DC83906-F248-11E8-B48F-1D18A9856A87","first_name":"Jesus","full_name":"Perez Rodriguez, Jesus","last_name":"Perez Rodriguez"},{"last_name":"Pietroni","full_name":"Pietroni, Nico","first_name":"Nico"},{"first_name":"Federico","full_name":"Ponchio, Federico","last_name":"Ponchio"},{"full_name":"Bickel, Bernd","first_name":"Bernd","last_name":"Bickel","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385"},{"last_name":"Cignoni","full_name":"Cignoni, Paolo","first_name":"Paolo"}],"day":"10","conference":{"location":"Barcelona, Spain","name":"IASS: International Association for Shell and Spatial Structures","start_date":"2019-10-07","end_date":"2019-10-10"},"title":"FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels","citation":{"short":"F. Laccone, L. Malomo, J. Perez Rodriguez, N. Pietroni, F. Ponchio, B. Bickel, P. Cignoni, in:, IASS Symposium 2019 - 60th Anniversary Symposium of the International Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th International Conference on Textile Composites and Inflatable Structures, FORM and FORCE, International Center for Numerical Methods in Engineering, 2019, pp. 509–515.","ama":"Laccone F, Malomo L, Perez Rodriguez J, et al. FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels. In: <i>IASS Symposium 2019 - 60th Anniversary Symposium of the International Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th International Conference on Textile Composites and Inflatable Structures, FORM and FORCE</i>. International Center for Numerical Methods in Engineering; 2019:509-515.","apa":"Laccone, F., Malomo, L., Perez Rodriguez, J., Pietroni, N., Ponchio, F., Bickel, B., &#38; Cignoni, P. (2019). FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels. In <i>IASS Symposium 2019 - 60th Anniversary Symposium of the International Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th International Conference on Textile Composites and Inflatable Structures, FORM and FORCE</i> (pp. 509–515). Barcelona, Spain: International Center for Numerical Methods in Engineering.","chicago":"Laccone, Francesco, Luigi Malomo, Jesus Perez Rodriguez, Nico Pietroni, Federico Ponchio, Bernd Bickel, and Paolo Cignoni. “FlexMaps Pavilion: A Twisted Arc Made of Mesostructured Flat Flexible Panels.” In <i>IASS Symposium 2019 - 60th Anniversary Symposium of the International Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th International Conference on Textile Composites and Inflatable Structures, FORM and FORCE</i>, 509–15. International Center for Numerical Methods in Engineering, 2019.","ieee":"F. Laccone <i>et al.</i>, “FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels,” in <i>IASS Symposium 2019 - 60th Anniversary Symposium of the International Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th International Conference on Textile Composites and Inflatable Structures, FORM and FORCE</i>, Barcelona, Spain, 2019, pp. 509–515.","ista":"Laccone F, Malomo L, Perez Rodriguez J, Pietroni N, Ponchio F, Bickel B, Cignoni P. 2019. FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels. IASS Symposium 2019 - 60th Anniversary Symposium of the International Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th International Conference on Textile Composites and Inflatable Structures, FORM and FORCE. IASS: International Association for Shell and Spatial Structures, 509–515.","mla":"Laccone, Francesco, et al. “FlexMaps Pavilion: A Twisted Arc Made of Mesostructured Flat Flexible Panels.” <i>IASS Symposium 2019 - 60th Anniversary Symposium of the International Association for Shell and Spatial Structures; Structural Membranes 2019 - 9th International Conference on Textile Composites and Inflatable Structures, FORM and FORCE</i>, International Center for Numerical Methods in Engineering, 2019, pp. 509–15."}},{"publication_status":"published","oa":1,"file_date_updated":"2021-06-04T12:50:47Z","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"volume":116,"article_processing_charge":"No","issue":"19","file":[{"date_created":"2021-06-04T12:50:47Z","success":1,"file_id":"9461","relation":"main_file","content_type":"application/pdf","checksum":"5b0ae3779b8b21b5223bd2d3cceede3a","access_level":"open_access","date_updated":"2021-06-04T12:50:47Z","creator":"asandaue","file_size":1142540,"file_name":"2019_PNAS_Kim.pdf"}],"date_published":"2019-05-07T00:00:00Z","_id":"9460","abstract":[{"text":"Epigenetic reprogramming is required for proper regulation of gene expression in eukaryotic organisms. In Arabidopsis, active DNA demethylation is crucial for seed viability, pollen function, and successful reproduction. The DEMETER (DME) DNA glycosylase initiates localized DNA demethylation in vegetative and central cells, so-called companion cells that are adjacent to sperm and egg gametes, respectively. In rice, the central cell genome displays local DNA hypomethylation, suggesting that active DNA demethylation also occurs in rice; however, the enzyme responsible for this process is unknown. One candidate is the rice REPRESSOR OF SILENCING 1a (ROS1a) gene, which is related to DME and is essential for rice seed viability and pollen function. Here, we report genome-wide analyses of DNA methylation in wild-type and ros1a mutant sperm and vegetative cells. We find that the rice vegetative cell genome is locally hypomethylated compared with sperm by a process that requires ROS1a activity. We show that many ROS1a target sequences in the vegetative cell are hypomethylated in the rice central cell, suggesting that ROS1a also demethylates the central cell genome. Similar to Arabidopsis, we show that sperm non-CG methylation is indirectly promoted by DNA demethylation in the vegetative cell. These results reveal that DNA glycosylase-mediated DNA demethylation processes are conserved in Arabidopsis and rice, plant species that diverged 150 million years ago. Finally, although global non-CG methylation levels of sperm and egg differ, the maternal and paternal embryo genomes show similar non-CG methylation levels, suggesting that rice gamete genomes undergo dynamic DNA methylation reprogramming after cell fusion.","lang":"eng"}],"external_id":{"pmid":["31000601"]},"scopus_import":"1","date_updated":"2021-12-14T07:52:30Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"article_type":"original","oa_version":"Published Version","year":"2019","has_accepted_license":"1","publisher":"National Academy of Sciences","publication":"Proceedings of the National Academy of Sciences","quality_controlled":"1","department":[{"_id":"DaZi"}],"status":"public","intvolume":"       116","page":"9652-9657","month":"05","extern":"1","date_created":"2021-06-04T12:38:20Z","pmid":1,"keyword":["Multidisciplinary"],"language":[{"iso":"eng"}],"ddc":["580"],"doi":"10.1073/pnas.1821435116","citation":{"short":"M.Y. Kim, A. Ono, S. Scholten, T. Kinoshita, D. Zilberman, T. Okamoto, R.L. Fischer, Proceedings of the National Academy of Sciences 116 (2019) 9652–9657.","ama":"Kim MY, Ono A, Scholten S, et al. DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm. <i>Proceedings of the National Academy of Sciences</i>. 2019;116(19):9652-9657. doi:<a href=\"https://doi.org/10.1073/pnas.1821435116\">10.1073/pnas.1821435116</a>","apa":"Kim, M. Y., Ono, A., Scholten, S., Kinoshita, T., Zilberman, D., Okamoto, T., &#38; Fischer, R. L. (2019). DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1821435116\">https://doi.org/10.1073/pnas.1821435116</a>","chicago":"Kim, M. Yvonne, Akemi Ono, Stefan Scholten, Tetsu Kinoshita, Daniel Zilberman, Takashi Okamoto, and Robert L. Fischer. “DNA Demethylation by ROS1a in Rice Vegetative Cells Promotes Methylation in Sperm.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2019. <a href=\"https://doi.org/10.1073/pnas.1821435116\">https://doi.org/10.1073/pnas.1821435116</a>.","ieee":"M. Y. Kim <i>et al.</i>, “DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm,” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 19. National Academy of Sciences, pp. 9652–9657, 2019.","ista":"Kim MY, Ono A, Scholten S, Kinoshita T, Zilberman D, Okamoto T, Fischer RL. 2019. DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm. Proceedings of the National Academy of Sciences. 116(19), 9652–9657.","mla":"Kim, M. Yvonne, et al. “DNA Demethylation by ROS1a in Rice Vegetative Cells Promotes Methylation in Sperm.” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 19, National Academy of Sciences, 2019, pp. 9652–57, doi:<a href=\"https://doi.org/10.1073/pnas.1821435116\">10.1073/pnas.1821435116</a>."},"title":"DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm","day":"07","type":"journal_article","author":[{"last_name":"Kim","first_name":"M. Yvonne","full_name":"Kim, M. Yvonne"},{"first_name":"Akemi","full_name":"Ono, Akemi","last_name":"Ono"},{"first_name":"Stefan","full_name":"Scholten, Stefan","last_name":"Scholten"},{"full_name":"Kinoshita, Tetsu","first_name":"Tetsu","last_name":"Kinoshita"},{"id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","orcid":"0000-0002-0123-8649","full_name":"Zilberman, Daniel","first_name":"Daniel","last_name":"Zilberman"},{"first_name":"Takashi","full_name":"Okamoto, Takashi","last_name":"Okamoto"},{"last_name":"Fischer","first_name":"Robert L.","full_name":"Fischer, Robert L."}]},{"publication_status":"published","oa":1,"file_date_updated":"2021-06-08T09:29:19Z","volume":12,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"article_processing_charge":"No","article_number":"62","file":[{"content_type":"application/pdf","file_id":"9531","relation":"main_file","date_created":"2021-06-08T09:29:19Z","success":1,"file_name":"2019_EpigeneticsAndChromatin_Harris.pdf","file_size":3221067,"creator":"asandaue","checksum":"86ff50a7517891511af2733c76c81b67","date_updated":"2021-06-08T09:29:19Z","access_level":"open_access"}],"_id":"9530","date_published":"2019-10-10T00:00:00Z","abstract":[{"text":"Background\r\nDNA methylation of active genes, also known as gene body methylation, is found in many animal and plant genomes. Despite this, the transcriptional and developmental role of such methylation remains poorly understood. Here, we explore the dynamic range of DNA methylation in honey bee, a model organism for gene body methylation.\r\n\r\nResults\r\nOur data show that CG methylation in gene bodies globally fluctuates during honey bee development. However, these changes cause no gene expression alterations. Intriguingly, despite the global alterations, tissue-specific CG methylation patterns of complete genes or exons are rare, implying robust maintenance of genic methylation during development. Additionally, we show that CG methylation maintenance fluctuates in somatic cells, while reaching maximum fidelity in sperm cells. Finally, unlike universally present CG methylation, we discovered non-CG methylation specifically in bee heads that resembles such methylation in mammalian brain tissue.\r\n\r\nConclusions\r\nBased on these results, we propose that gene body CG methylation can oscillate during development if it is kept to a level adequate to preserve function. Additionally, our data suggest that heightened non-CG methylation is a conserved regulator of animal nervous systems.","lang":"eng"}],"date_updated":"2021-12-14T07:53:00Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","external_id":{"pmid":["31601251"]},"scopus_import":"1","publication_identifier":{"eissn":["1756-8935"]},"article_type":"original","year":"2019","oa_version":"Published Version","has_accepted_license":"1","publisher":"Springer Nature","quality_controlled":"1","department":[{"_id":"DaZi"}],"publication":"Epigenetics and Chromatin","intvolume":"        12","status":"public","extern":"1","month":"10","date_created":"2021-06-08T09:21:51Z","pmid":1,"language":[{"iso":"eng"}],"ddc":["570"],"doi":"10.1186/s13072-019-0307-4","citation":{"short":"K.D. Harris, J.P.B. Lloyd, K. Domb, D. Zilberman, A. Zemach, Epigenetics and Chromatin 12 (2019).","apa":"Harris, K. D., Lloyd, J. P. B., Domb, K., Zilberman, D., &#38; Zemach, A. (2019). DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development. <i>Epigenetics and Chromatin</i>. Springer Nature. <a href=\"https://doi.org/10.1186/s13072-019-0307-4\">https://doi.org/10.1186/s13072-019-0307-4</a>","ama":"Harris KD, Lloyd JPB, Domb K, Zilberman D, Zemach A. DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development. <i>Epigenetics and Chromatin</i>. 2019;12. doi:<a href=\"https://doi.org/10.1186/s13072-019-0307-4\">10.1186/s13072-019-0307-4</a>","ista":"Harris KD, Lloyd JPB, Domb K, Zilberman D, Zemach A. 2019. DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development. Epigenetics and Chromatin. 12, 62.","ieee":"K. D. Harris, J. P. B. Lloyd, K. Domb, D. Zilberman, and A. Zemach, “DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development,” <i>Epigenetics and Chromatin</i>, vol. 12. Springer Nature, 2019.","chicago":"Harris, Keith D., James P. B. Lloyd, Katherine Domb, Daniel Zilberman, and Assaf Zemach. “DNA Methylation Is Maintained with High Fidelity in the Honey Bee Germline and Exhibits Global Non-Functional Fluctuations during Somatic Development.” <i>Epigenetics and Chromatin</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1186/s13072-019-0307-4\">https://doi.org/10.1186/s13072-019-0307-4</a>.","mla":"Harris, Keith D., et al. “DNA Methylation Is Maintained with High Fidelity in the Honey Bee Germline and Exhibits Global Non-Functional Fluctuations during Somatic Development.” <i>Epigenetics and Chromatin</i>, vol. 12, 62, Springer Nature, 2019, doi:<a href=\"https://doi.org/10.1186/s13072-019-0307-4\">10.1186/s13072-019-0307-4</a>."},"title":"DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development","day":"10","type":"journal_article","author":[{"last_name":"Harris","full_name":"Harris, Keith D.","first_name":"Keith D."},{"full_name":"Lloyd, James P. B.","first_name":"James P. B.","last_name":"Lloyd"},{"full_name":"Domb, Katherine","first_name":"Katherine","last_name":"Domb"},{"full_name":"Zilberman, Daniel","first_name":"Daniel","last_name":"Zilberman","orcid":"0000-0002-0123-8649","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1"},{"last_name":"Zemach","first_name":"Assaf","full_name":"Zemach, Assaf"}]},{"type":"journal_article","author":[{"first_name":"David","full_name":"Conlon, David","last_name":"Conlon"},{"last_name":"Fox","full_name":"Fox, Jacob","first_name":"Jacob"},{"orcid":"0000-0002-4003-7567","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","first_name":"Matthew Alan","full_name":"Kwan, Matthew Alan","last_name":"Kwan"},{"last_name":"Sudakov","first_name":"Benny","full_name":"Sudakov, Benny"}],"day":"01","title":"Hypergraph cuts above the average","citation":{"short":"D. Conlon, J. Fox, M.A. Kwan, B. Sudakov, Israel Journal of Mathematics 233 (2019) 67–111.","apa":"Conlon, D., Fox, J., Kwan, M. A., &#38; Sudakov, B. (2019). Hypergraph cuts above the average. <i>Israel Journal of Mathematics</i>. Springer. <a href=\"https://doi.org/10.1007/s11856-019-1897-z\">https://doi.org/10.1007/s11856-019-1897-z</a>","ama":"Conlon D, Fox J, Kwan MA, Sudakov B. Hypergraph cuts above the average. <i>Israel Journal of Mathematics</i>. 2019;233(1):67-111. doi:<a href=\"https://doi.org/10.1007/s11856-019-1897-z\">10.1007/s11856-019-1897-z</a>","ista":"Conlon D, Fox J, Kwan MA, Sudakov B. 2019. Hypergraph cuts above the average. Israel Journal of Mathematics. 233(1), 67–111.","ieee":"D. Conlon, J. Fox, M. A. Kwan, and B. Sudakov, “Hypergraph cuts above the average,” <i>Israel Journal of Mathematics</i>, vol. 233, no. 1. Springer, pp. 67–111, 2019.","chicago":"Conlon, David, Jacob Fox, Matthew Alan Kwan, and Benny Sudakov. “Hypergraph Cuts above the Average.” <i>Israel Journal of Mathematics</i>. Springer, 2019. <a href=\"https://doi.org/10.1007/s11856-019-1897-z\">https://doi.org/10.1007/s11856-019-1897-z</a>.","mla":"Conlon, David, et al. “Hypergraph Cuts above the Average.” <i>Israel Journal of Mathematics</i>, vol. 233, no. 1, Springer, 2019, pp. 67–111, doi:<a href=\"https://doi.org/10.1007/s11856-019-1897-z\">10.1007/s11856-019-1897-z</a>."},"doi":"10.1007/s11856-019-1897-z","language":[{"iso":"eng"}],"date_created":"2021-06-21T13:36:02Z","extern":"1","month":"08","page":"67-111","intvolume":"       233","status":"public","quality_controlled":"1","publication":"Israel Journal of Mathematics","publisher":"Springer","oa_version":"Preprint","year":"2019","article_type":"original","publication_identifier":{"eissn":["1565-8511"],"issn":["0021-2172"]},"date_updated":"2023-02-23T14:01:41Z","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","external_id":{"arxiv":["1803.08462"]},"scopus_import":"1","_id":"9580","abstract":[{"text":"An r-cut of a k-uniform hypergraph H is a partition of the vertex set of H into r parts and the size of the cut is the number of edges which have a vertex in each part. A classical result of Edwards says that every m-edge graph has a 2-cut of size m/2+Ω)(m−−√) and this is best possible. That is, there exist cuts which exceed the expected size of a random cut by some multiple of the standard deviation. We study analogues of this and related results in hypergraphs. First, we observe that similarly to graphs, every m-edge k-uniform hypergraph has an r-cut whose size is Ω(m−−√) larger than the expected size of a random r-cut. Moreover, in the case where k = 3 and r = 2 this bound is best possible and is attained by Steiner triple systems. Surprisingly, for all other cases (that is, if k ≥ 4 or r ≥ 3), we show that every m-edge k-uniform hypergraph has an r-cut whose size is Ω(m5/9) larger than the expected size of a random r-cut. This is a significant difference in behaviour, since the amount by which the size of the largest cut exceeds the expected size of a random cut is now considerably larger than the standard deviation.","lang":"eng"}],"date_published":"2019-08-01T00:00:00Z","issue":"1","article_processing_charge":"No","arxiv":1,"volume":233,"oa":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1803.08462"}],"publication_status":"published"},{"_id":"9585","abstract":[{"lang":"eng","text":"An n-vertex graph is called C-Ramsey if it has no clique or independent set of size C log n. All known constructions of Ramsey graphs involve randomness in an essential way, and there is an ongoing line of research towards showing that in fact all Ramsey graphs must obey certain “richness” properties characteristic of random graphs. More than 25 years ago, Erdős, Faudree and Sós conjectured that in any C-Ramsey graph there are Ω(n^5/2) induced subgraphs, no pair of which have the same numbers of vertices and edges. Improving on earlier results of Alon, Balogh, Kostochka and Samotij, in this paper we prove this conjecture."}],"date_published":"2019-10-15T00:00:00Z","arxiv":1,"issue":"8","article_processing_charge":"No","volume":372,"publication_status":"published","oa":1,"main_file_link":[{"url":"https://doi.org/10.1090/tran/7729","open_access":"1"}],"article_type":"original","year":"2019","oa_version":"Submitted Version","date_updated":"2023-02-23T14:01:50Z","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","scopus_import":"1","external_id":{"arxiv":["1712.05656"]},"publication_identifier":{"issn":["0002-9947"],"eissn":["1088-6850"]},"extern":"1","month":"10","date_created":"2021-06-22T09:31:45Z","page":"5571-5594","quality_controlled":"1","publication":"Transactions of the American Mathematical Society","intvolume":"       372","status":"public","publisher":"American Mathematical Society","day":"15","type":"journal_article","author":[{"orcid":"0000-0002-4003-7567","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","last_name":"Kwan","full_name":"Kwan, Matthew Alan","first_name":"Matthew Alan"},{"last_name":"Sudakov","full_name":"Sudakov, Benny","first_name":"Benny"}],"citation":{"mla":"Kwan, Matthew Alan, and Benny Sudakov. “Proof of a Conjecture on Induced Subgraphs of Ramsey Graphs.” <i>Transactions of the American Mathematical Society</i>, vol. 372, no. 8, American Mathematical Society, 2019, pp. 5571–94, doi:<a href=\"https://doi.org/10.1090/tran/7729\">10.1090/tran/7729</a>.","chicago":"Kwan, Matthew Alan, and Benny Sudakov. “Proof of a Conjecture on Induced Subgraphs of Ramsey Graphs.” <i>Transactions of the American Mathematical Society</i>. American Mathematical Society, 2019. <a href=\"https://doi.org/10.1090/tran/7729\">https://doi.org/10.1090/tran/7729</a>.","ista":"Kwan MA, Sudakov B. 2019. Proof of a conjecture on induced subgraphs of Ramsey graphs. Transactions of the American Mathematical Society. 372(8), 5571–5594.","ieee":"M. A. Kwan and B. Sudakov, “Proof of a conjecture on induced subgraphs of Ramsey graphs,” <i>Transactions of the American Mathematical Society</i>, vol. 372, no. 8. American Mathematical Society, pp. 5571–5594, 2019.","ama":"Kwan MA, Sudakov B. Proof of a conjecture on induced subgraphs of Ramsey graphs. <i>Transactions of the American Mathematical Society</i>. 2019;372(8):5571-5594. doi:<a href=\"https://doi.org/10.1090/tran/7729\">10.1090/tran/7729</a>","apa":"Kwan, M. A., &#38; Sudakov, B. (2019). Proof of a conjecture on induced subgraphs of Ramsey graphs. <i>Transactions of the American Mathematical Society</i>. American Mathematical Society. <a href=\"https://doi.org/10.1090/tran/7729\">https://doi.org/10.1090/tran/7729</a>","short":"M.A. Kwan, B. Sudakov, Transactions of the American Mathematical Society 372 (2019) 5571–5594."},"title":"Proof of a conjecture on induced subgraphs of Ramsey graphs","language":[{"iso":"eng"}],"doi":"10.1090/tran/7729"},{"doi":"10.1112/jlms.12192","language":[{"iso":"eng"}],"author":[{"orcid":"0000-0002-4003-7567","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","full_name":"Kwan, Matthew Alan","first_name":"Matthew Alan","last_name":"Kwan"},{"full_name":"Sudakov, Benny","first_name":"Benny","last_name":"Sudakov"},{"last_name":"Tran","first_name":"Tuan","full_name":"Tran, Tuan"}],"type":"journal_article","day":"03","title":"Anticoncentration for subgraph statistics","citation":{"ama":"Kwan MA, Sudakov B, Tran T. Anticoncentration for subgraph statistics. <i>Journal of the London Mathematical Society</i>. 2019;99(3):757-777. doi:<a href=\"https://doi.org/10.1112/jlms.12192\">10.1112/jlms.12192</a>","apa":"Kwan, M. A., Sudakov, B., &#38; Tran, T. (2019). Anticoncentration for subgraph statistics. <i>Journal of the London Mathematical Society</i>. Wiley. <a href=\"https://doi.org/10.1112/jlms.12192\">https://doi.org/10.1112/jlms.12192</a>","short":"M.A. Kwan, B. Sudakov, T. Tran, Journal of the London Mathematical Society 99 (2019) 757–777.","mla":"Kwan, Matthew Alan, et al. “Anticoncentration for Subgraph Statistics.” <i>Journal of the London Mathematical Society</i>, vol. 99, no. 3, Wiley, 2019, pp. 757–77, doi:<a href=\"https://doi.org/10.1112/jlms.12192\">10.1112/jlms.12192</a>.","chicago":"Kwan, Matthew Alan, Benny Sudakov, and Tuan Tran. “Anticoncentration for Subgraph Statistics.” <i>Journal of the London Mathematical Society</i>. Wiley, 2019. <a href=\"https://doi.org/10.1112/jlms.12192\">https://doi.org/10.1112/jlms.12192</a>.","ieee":"M. A. Kwan, B. Sudakov, and T. Tran, “Anticoncentration for subgraph statistics,” <i>Journal of the London Mathematical Society</i>, vol. 99, no. 3. Wiley, pp. 757–777, 2019.","ista":"Kwan MA, Sudakov B, Tran T. 2019. Anticoncentration for subgraph statistics. Journal of the London Mathematical Society. 99(3), 757–777."},"status":"public","intvolume":"        99","publication":"Journal of the London Mathematical Society","quality_controlled":"1","publisher":"Wiley","date_created":"2021-06-22T09:46:03Z","month":"05","extern":"1","page":"757-777","publication_identifier":{"issn":["0024-6107"],"eissn":["1469-7750"]},"external_id":{"arxiv":["1807.05202"]},"scopus_import":"1","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","date_updated":"2023-02-23T14:01:53Z","oa_version":"Preprint","year":"2019","article_type":"original","volume":99,"oa":1,"main_file_link":[{"url":"https://arxiv.org/abs/1807.05202","open_access":"1"}],"publication_status":"published","_id":"9586","date_published":"2019-05-03T00:00:00Z","abstract":[{"text":"Consider integers  𝑘,ℓ  such that  0⩽ℓ⩽(𝑘2) . Given a large graph  𝐺 , what is the fraction of  𝑘 -vertex subsets of  𝐺  which span exactly  ℓ  edges? When  𝐺  is empty or complete, and  ℓ  is zero or  (𝑘2) , this fraction can be exactly 1. On the other hand, if  ℓ  is far from these extreme values, one might expect that this fraction is substantially smaller than 1. This was recently proved by Alon, Hefetz, Krivelevich, and Tyomkyn who initiated the systematic study of this question and proposed several natural conjectures.\r\nLet  ℓ∗=min{ℓ,(𝑘2)−ℓ} . Our main result is that for any  𝑘  and  ℓ , the fraction of  𝑘 -vertex subsets that span  ℓ  edges is at most  log𝑂(1)(ℓ∗/𝑘)√ 𝑘/ℓ∗, which is best-possible up to the logarithmic factor. This improves on multiple results of Alon, Hefetz, Krivelevich, and Tyomkyn, and resolves one of their conjectures. In addition, we also make some first steps towards some analogous questions for hypergraphs.\r\nOur proofs involve some Ramsey-type arguments, and a number of different probabilistic tools, such as polynomial anticoncentration inequalities, hypercontractivity, and a coupling trick for random variables defined on a ‘slice’ of the Boolean hypercube.","lang":"eng"}],"article_processing_charge":"No","issue":"3","arxiv":1},{"type":"journal_article","author":[{"last_name":"Kapil","full_name":"Kapil, Venkat","first_name":"Venkat"},{"last_name":"Rossi","full_name":"Rossi, Mariana","first_name":"Mariana"},{"last_name":"Marsalek","full_name":"Marsalek, Ondrej","first_name":"Ondrej"},{"last_name":"Petraglia","full_name":"Petraglia, Riccardo","first_name":"Riccardo"},{"last_name":"Litman","first_name":"Yair","full_name":"Litman, Yair"},{"last_name":"Spura","first_name":"Thomas","full_name":"Spura, Thomas"},{"orcid":"0000-0002-3584-9632","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","last_name":"Cheng","full_name":"Cheng, Bingqing","first_name":"Bingqing"},{"first_name":"Alice","full_name":"Cuzzocrea, Alice","last_name":"Cuzzocrea"},{"last_name":"Meißner","first_name":"Robert H.","full_name":"Meißner, Robert H."},{"last_name":"Wilkins","first_name":"David M.","full_name":"Wilkins, David M."},{"last_name":"Helfrecht","first_name":"Benjamin A.","full_name":"Helfrecht, Benjamin A."},{"first_name":"Przemysław","full_name":"Juda, Przemysław","last_name":"Juda"},{"last_name":"Bienvenue","first_name":"Sébastien P.","full_name":"Bienvenue, Sébastien P."},{"last_name":"Fang","full_name":"Fang, Wei","first_name":"Wei"},{"last_name":"Kessler","full_name":"Kessler, Jan","first_name":"Jan"},{"full_name":"Poltavsky, Igor","first_name":"Igor","last_name":"Poltavsky"},{"full_name":"Vandenbrande, Steven","first_name":"Steven","last_name":"Vandenbrande"},{"last_name":"Wieme","full_name":"Wieme, Jelle","first_name":"Jelle"},{"first_name":"Clemence","full_name":"Corminboeuf, Clemence","last_name":"Corminboeuf"},{"full_name":"Kühne, Thomas D.","first_name":"Thomas D.","last_name":"Kühne"},{"last_name":"Manolopoulos","full_name":"Manolopoulos, David E.","first_name":"David E."},{"full_name":"Markland, Thomas E.","first_name":"Thomas E.","last_name":"Markland"},{"last_name":"Richardson","first_name":"Jeremy O.","full_name":"Richardson, Jeremy O."},{"last_name":"Tkatchenko","full_name":"Tkatchenko, Alexandre","first_name":"Alexandre"},{"full_name":"Tribello, Gareth A.","first_name":"Gareth A.","last_name":"Tribello"},{"last_name":"Van Speybroeck","full_name":"Van Speybroeck, Veronique","first_name":"Veronique"},{"full_name":"Ceriotti, Michele","first_name":"Michele","last_name":"Ceriotti"}],"day":"01","title":"i-PI 2.0: A universal force engine for advanced molecular simulations","citation":{"ama":"Kapil V, Rossi M, Marsalek O, et al. i-PI 2.0: A universal force engine for advanced molecular simulations. <i>Computer Physics Communications</i>. 2019;236:214-223. doi:<a href=\"https://doi.org/10.1016/j.cpc.2018.09.020\">10.1016/j.cpc.2018.09.020</a>","apa":"Kapil, V., Rossi, M., Marsalek, O., Petraglia, R., Litman, Y., Spura, T., … Ceriotti, M. (2019). i-PI 2.0: A universal force engine for advanced molecular simulations. <i>Computer Physics Communications</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cpc.2018.09.020\">https://doi.org/10.1016/j.cpc.2018.09.020</a>","short":"V. Kapil, M. Rossi, O. Marsalek, R. Petraglia, Y. Litman, T. Spura, B. Cheng, A. Cuzzocrea, R.H. Meißner, D.M. Wilkins, B.A. Helfrecht, P. Juda, S.P. Bienvenue, W. Fang, J. Kessler, I. Poltavsky, S. Vandenbrande, J. Wieme, C. Corminboeuf, T.D. Kühne, D.E. Manolopoulos, T.E. Markland, J.O. Richardson, A. Tkatchenko, G.A. Tribello, V. Van Speybroeck, M. Ceriotti, Computer Physics Communications 236 (2019) 214–223.","mla":"Kapil, Venkat, et al. “I-PI 2.0: A Universal Force Engine for Advanced Molecular Simulations.” <i>Computer Physics Communications</i>, vol. 236, Elsevier, 2019, pp. 214–23, doi:<a href=\"https://doi.org/10.1016/j.cpc.2018.09.020\">10.1016/j.cpc.2018.09.020</a>.","chicago":"Kapil, Venkat, Mariana Rossi, Ondrej Marsalek, Riccardo Petraglia, Yair Litman, Thomas Spura, Bingqing Cheng, et al. “I-PI 2.0: A Universal Force Engine for Advanced Molecular Simulations.” <i>Computer Physics Communications</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.cpc.2018.09.020\">https://doi.org/10.1016/j.cpc.2018.09.020</a>.","ieee":"V. Kapil <i>et al.</i>, “i-PI 2.0: A universal force engine for advanced molecular simulations,” <i>Computer Physics Communications</i>, vol. 236. Elsevier, pp. 214–223, 2019.","ista":"Kapil V, Rossi M, Marsalek O, Petraglia R, Litman Y, Spura T, Cheng B, Cuzzocrea A, Meißner RH, Wilkins DM, Helfrecht BA, Juda P, Bienvenue SP, Fang W, Kessler J, Poltavsky I, Vandenbrande S, Wieme J, Corminboeuf C, Kühne TD, Manolopoulos DE, Markland TE, Richardson JO, Tkatchenko A, Tribello GA, Van Speybroeck V, Ceriotti M. 2019. i-PI 2.0: A universal force engine for advanced molecular simulations. Computer Physics Communications. 236, 214–223."},"doi":"10.1016/j.cpc.2018.09.020","language":[{"iso":"eng"}],"date_created":"2021-07-16T08:53:01Z","extern":"1","month":"03","page":"214-223","intvolume":"       236","status":"public","quality_controlled":"1","publication":"Computer Physics Communications","publisher":"Elsevier","oa_version":"Preprint","year":"2019","article_type":"original","publication_identifier":{"issn":["0010-4655"]},"date_updated":"2021-08-09T12:37:16Z","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","scopus_import":"1","external_id":{"arxiv":["1808.03824"]},"_id":"9677","abstract":[{"lang":"eng","text":"Progress in the atomic-scale modeling of matter over the past decade has been tremendous. This progress has been brought about by improvements in methods for evaluating interatomic forces that work by either solving the electronic structure problem explicitly, or by computing accurate approximations of the solution and by the development of techniques that use the Born–Oppenheimer (BO) forces to move the atoms on the BO potential energy surface. As a consequence of these developments it is now possible to identify stable or metastable states, to sample configurations consistent with the appropriate thermodynamic ensemble, and to estimate the kinetics of reactions and phase transitions. All too often, however, progress is slowed down by the bottleneck associated with implementing new optimization algorithms and/or sampling techniques into the many existing electronic-structure and empirical-potential codes. To address this problem, we are thus releasing a new version of the i-PI software. This piece of software is an easily extensible framework for implementing advanced atomistic simulation techniques using interatomic potentials and forces calculated by an external driver code. While the original version of the code (Ceriotti et al., 2014) was developed with a focus on path integral molecular dynamics techniques, this second release of i-PI not only includes several new advanced path integral methods, but also offers other classes of algorithms. In other words, i-PI is moving towards becoming a universal force engine that is both modular and tightly coupled to the driver codes that evaluate the potential energy surface and its derivatives."}],"date_published":"2019-03-01T00:00:00Z","article_processing_charge":"No","arxiv":1,"volume":236,"main_file_link":[{"url":"https://arxiv.org/abs/1808.03824","open_access":"1"}],"oa":1,"publication_status":"published"},{"oa":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1911.01140"}],"publication_status":"published","volume":16,"issue":"1","article_processing_charge":"No","arxiv":1,"date_published":"2019-01-14T00:00:00Z","_id":"9680","abstract":[{"text":"Atomistic modeling of phase transitions, chemical reactions, or other rare events that involve overcoming high free energy barriers usually entails prohibitively long simulation times. Introducing a bias potential as a function of an appropriately chosen set of collective variables can significantly accelerate the exploration of phase space, albeit at the price of distorting the distribution of microstates. Efficient reweighting to recover the unbiased distribution can be nontrivial when employing adaptive sampling techniques such as metadynamics, variationally enhanced sampling, or parallel bias metadynamics, in which the system evolves in a quasi-equilibrium manner under a time-dependent bias. We introduce an iterative unbiasing scheme that makes efficient use of all the trajectory data and that does not require the distribution to be evaluated on a grid. The method can thus be used even when the bias has a high dimensionality. We benchmark this approach against some of the existing schemes on model systems with different complexity and dimensionality.","lang":"eng"}],"publication_identifier":{"issn":["1549-9618"],"eissn":["1549-9626"]},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","date_updated":"2021-08-09T12:37:37Z","external_id":{"arxiv":["1911.01140"],"pmid":["31743021"]},"scopus_import":"1","oa_version":"Preprint","year":"2019","article_type":"original","publisher":"American Chemical Society","status":"public","intvolume":"        16","quality_controlled":"1","publication":"Journal of Chemical Theory and Computation","page":"100-107","date_created":"2021-07-19T06:56:45Z","extern":"1","month":"01","pmid":1,"doi":"10.1021/acs.jctc.9b00907","language":[{"iso":"eng"}],"title":"Iterative unbiasing of quasi-equilibrium sampling","citation":{"short":"F. Giberti, B. Cheng, G.A. Tribello, M. Ceriotti, Journal of Chemical Theory and Computation 16 (2019) 100–107.","ama":"Giberti F, Cheng B, Tribello GA, Ceriotti M. Iterative unbiasing of quasi-equilibrium sampling. <i>Journal of Chemical Theory and Computation</i>. 2019;16(1):100-107. doi:<a href=\"https://doi.org/10.1021/acs.jctc.9b00907\">10.1021/acs.jctc.9b00907</a>","apa":"Giberti, F., Cheng, B., Tribello, G. A., &#38; Ceriotti, M. (2019). Iterative unbiasing of quasi-equilibrium sampling. <i>Journal of Chemical Theory and Computation</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.jctc.9b00907\">https://doi.org/10.1021/acs.jctc.9b00907</a>","chicago":"Giberti, F., Bingqing Cheng, G. A. Tribello, and M. Ceriotti. “Iterative Unbiasing of Quasi-Equilibrium Sampling.” <i>Journal of Chemical Theory and Computation</i>. American Chemical Society, 2019. <a href=\"https://doi.org/10.1021/acs.jctc.9b00907\">https://doi.org/10.1021/acs.jctc.9b00907</a>.","ista":"Giberti F, Cheng B, Tribello GA, Ceriotti M. 2019. Iterative unbiasing of quasi-equilibrium sampling. Journal of Chemical Theory and Computation. 16(1), 100–107.","ieee":"F. Giberti, B. Cheng, G. A. Tribello, and M. Ceriotti, “Iterative unbiasing of quasi-equilibrium sampling,” <i>Journal of Chemical Theory and Computation</i>, vol. 16, no. 1. American Chemical Society, pp. 100–107, 2019.","mla":"Giberti, F., et al. “Iterative Unbiasing of Quasi-Equilibrium Sampling.” <i>Journal of Chemical Theory and Computation</i>, vol. 16, no. 1, American Chemical Society, 2019, pp. 100–07, doi:<a href=\"https://doi.org/10.1021/acs.jctc.9b00907\">10.1021/acs.jctc.9b00907</a>."},"type":"journal_article","author":[{"last_name":"Giberti","full_name":"Giberti, F.","first_name":"F."},{"last_name":"Cheng","first_name":"Bingqing","full_name":"Cheng, Bingqing","orcid":"0000-0002-3584-9632","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9"},{"first_name":"G. A.","full_name":"Tribello, G. A.","last_name":"Tribello"},{"first_name":"M.","full_name":"Ceriotti, M.","last_name":"Ceriotti"}],"day":"14"},{"citation":{"apa":"Cheng, B., Engel, E. A., Behler, J., Dellago, C., &#38; Ceriotti, M. (2019). Ab initio thermodynamics of liquid and solid water. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1815117116\">https://doi.org/10.1073/pnas.1815117116</a>","ama":"Cheng B, Engel EA, Behler J, Dellago C, Ceriotti M. Ab initio thermodynamics of liquid and solid water. <i>Proceedings of the National Academy of Sciences</i>. 2019;116(4):1110-1115. doi:<a href=\"https://doi.org/10.1073/pnas.1815117116\">10.1073/pnas.1815117116</a>","short":"B. Cheng, E.A. Engel, J. Behler, C. Dellago, M. Ceriotti, Proceedings of the National Academy of Sciences 116 (2019) 1110–1115.","mla":"Cheng, Bingqing, et al. “Ab Initio Thermodynamics of Liquid and Solid Water.” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 4, National Academy of Sciences, 2019, pp. 1110–15, doi:<a href=\"https://doi.org/10.1073/pnas.1815117116\">10.1073/pnas.1815117116</a>.","ieee":"B. Cheng, E. A. Engel, J. Behler, C. Dellago, and M. Ceriotti, “Ab initio thermodynamics of liquid and solid water,” <i>Proceedings of the National Academy of Sciences</i>, vol. 116, no. 4. National Academy of Sciences, pp. 1110–1115, 2019.","ista":"Cheng B, Engel EA, Behler J, Dellago C, Ceriotti M. 2019. Ab initio thermodynamics of liquid and solid water. Proceedings of the National Academy of Sciences. 116(4), 1110–1115.","chicago":"Cheng, Bingqing, Edgar A. Engel, Jörg Behler, Christoph Dellago, and Michele Ceriotti. “Ab Initio Thermodynamics of Liquid and Solid Water.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2019. <a href=\"https://doi.org/10.1073/pnas.1815117116\">https://doi.org/10.1073/pnas.1815117116</a>."},"title":"Ab initio thermodynamics of liquid and solid water","day":"22","author":[{"id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","orcid":"0000-0002-3584-9632","first_name":"Bingqing","full_name":"Cheng, Bingqing","last_name":"Cheng"},{"first_name":"Edgar A.","full_name":"Engel, Edgar A.","last_name":"Engel"},{"last_name":"Behler","full_name":"Behler, Jörg","first_name":"Jörg"},{"last_name":"Dellago","first_name":"Christoph","full_name":"Dellago, Christoph"},{"full_name":"Ceriotti, Michele","first_name":"Michele","last_name":"Ceriotti"}],"type":"journal_article","pmid":1,"language":[{"iso":"eng"}],"doi":"10.1073/pnas.1815117116","page":"1110-1115","extern":"1","month":"01","date_created":"2021-07-19T10:17:09Z","publisher":"National Academy of Sciences","quality_controlled":"1","publication":"Proceedings of the National Academy of Sciences","intvolume":"       116","status":"public","article_type":"original","oa_version":"Published Version","year":"2019","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","date_updated":"2023-02-23T14:05:08Z","scopus_import":"1","external_id":{"pmid":["30610171"],"arxiv":["1811.08630"]},"publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"arxiv":1,"issue":"4","article_processing_charge":"No","date_published":"2019-01-22T00:00:00Z","_id":"9689","abstract":[{"text":"A central goal of computational physics and chemistry is to predict material properties by using first-principles methods based on the fundamental laws of quantum mechanics. However, the high computational costs of these methods typically prevent rigorous predictions of macroscopic quantities at finite temperatures, such as heat capacity, density, and chemical potential. Here, we enable such predictions by marrying advanced free-energy methods with data-driven machine-learning interatomic potentials. We show that, for the ubiquitous and technologically essential system of water, a first-principles thermodynamic description not only leads to excellent agreement with experiments, but also reveals the crucial role of nuclear quantum fluctuations in modulating the thermodynamic stabilities of different phases of water.","lang":"eng"}],"publication_status":"published","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.1815117116"}],"oa":1,"volume":116},{"year":"2019","oa_version":"Preprint","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"NanoFab"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2024-03-25T23:30:14Z","external_id":{"arxiv":["1910.05841"]},"article_processing_charge":"No","arxiv":1,"_id":"10065","date_published":"2019-10-13T00:00:00Z","abstract":[{"lang":"eng","text":"We study double quantum dots in a Ge/SiGe heterostructure and test their maturity towards singlet-triplet ($S-T_0$) qubits. We demonstrate a large range of tunability, from two single quantum dots to a double quantum dot. We measure Pauli spin blockade and study the anisotropy of the $g$-factor. We use an adjacent quantum dot for sensing charge transitions in the double quantum dot at interest. In conclusion, Ge/SiGe possesses all ingredients necessary for building a singlet-triplet qubit."}],"article_number":"1910.05841","oa":1,"main_file_link":[{"url":"https://arxiv.org/abs/1910.05841","open_access":"1"}],"publication_status":"submitted","title":"Assessing the potential of Ge/SiGe quantum dots as hosts for singlet-triplet qubits","ec_funded":1,"citation":{"mla":"Hofmann, Andrea C., et al. “Assessing the Potential of Ge/SiGe Quantum Dots as Hosts for Singlet-Triplet Qubits.” <i>ArXiv</i>, 1910.05841, doi:<a href=\"https://doi.org/10.48550/arXiv.1910.05841\">10.48550/arXiv.1910.05841</a>.","chicago":"Hofmann, Andrea C, Daniel Jirovec, Maxim Borovkov, Ivan Prieto Gonzalez, Andrea Ballabio, Jacopo Frigerio, Daniel Chrastina, Giovanni Isella, and Georgios Katsaros. “Assessing the Potential of Ge/SiGe Quantum Dots as Hosts for Singlet-Triplet Qubits.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.1910.05841\">https://doi.org/10.48550/arXiv.1910.05841</a>.","ista":"Hofmann AC, Jirovec D, Borovkov M, Prieto Gonzalez I, Ballabio A, Frigerio J, Chrastina D, Isella G, Katsaros G. Assessing the potential of Ge/SiGe quantum dots as hosts for singlet-triplet qubits. arXiv, 1910.05841.","ieee":"A. C. Hofmann <i>et al.</i>, “Assessing the potential of Ge/SiGe quantum dots as hosts for singlet-triplet qubits,” <i>arXiv</i>. .","ama":"Hofmann AC, Jirovec D, Borovkov M, et al. Assessing the potential of Ge/SiGe quantum dots as hosts for singlet-triplet qubits. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.1910.05841\">10.48550/arXiv.1910.05841</a>","apa":"Hofmann, A. C., Jirovec, D., Borovkov, M., Prieto Gonzalez, I., Ballabio, A., Frigerio, J., … Katsaros, G. (n.d.). Assessing the potential of Ge/SiGe quantum dots as hosts for singlet-triplet qubits. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.1910.05841\">https://doi.org/10.48550/arXiv.1910.05841</a>","short":"A.C. Hofmann, D. Jirovec, M. Borovkov, I. Prieto Gonzalez, A. Ballabio, J. Frigerio, D. Chrastina, G. Isella, G. Katsaros, ArXiv (n.d.)."},"author":[{"last_name":"Hofmann","first_name":"Andrea C","full_name":"Hofmann, Andrea C","id":"340F461A-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-7197-4801","id":"4C473F58-F248-11E8-B48F-1D18A9856A87","full_name":"Jirovec, Daniel","first_name":"Daniel","last_name":"Jirovec"},{"full_name":"Borovkov, Maxim","first_name":"Maxim","last_name":"Borovkov"},{"full_name":"Prieto Gonzalez, Ivan","first_name":"Ivan","last_name":"Prieto Gonzalez","id":"2A307FE2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7370-5357"},{"last_name":"Ballabio","full_name":"Ballabio, Andrea","first_name":"Andrea"},{"full_name":"Frigerio, Jacopo","first_name":"Jacopo","last_name":"Frigerio"},{"last_name":"Chrastina","first_name":"Daniel","full_name":"Chrastina, Daniel"},{"last_name":"Isella","full_name":"Isella, Giovanni","first_name":"Giovanni"},{"last_name":"Katsaros","full_name":"Katsaros, Georgios","first_name":"Georgios","orcid":"0000-0001-8342-202X","id":"38DB5788-F248-11E8-B48F-1D18A9856A87"}],"type":"preprint","day":"13","acknowledgement":"We thank Matthias Brauns for helpful discussions and careful proofreading of the manuscript. This project has received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement No 844511 and from the FWF project P30207. The research was supported by the Scientific Service Units of IST Austria through resources provided by the MIBA machine shop and the nanofabrication\r\nfacility.","project":[{"grant_number":"844511","name":"Majorana bound states in Ge/SiGe heterostructures","call_identifier":"H2020","_id":"26A151DA-B435-11E9-9278-68D0E5697425"},{"grant_number":"P30207","name":"Hole spin orbit qubits in Ge quantum wells","call_identifier":"FWF","_id":"2641CE5E-B435-11E9-9278-68D0E5697425"}],"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"10058"}]},"doi":"10.48550/arXiv.1910.05841","language":[{"iso":"eng"}],"date_created":"2021-10-01T12:14:51Z","month":"10","status":"public","department":[{"_id":"GeKa"}],"publication":"arXiv"},{"publication_status":"published","oa":1,"main_file_link":[{"url":"https://dl.acm.org/doi/10.1145/3360550","open_access":"1"}],"file_date_updated":"2021-11-12T11:41:56Z","volume":3,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"arxiv":1,"article_processing_charge":"No","file":[{"file_name":"2019_ACM_Chatterjee.pdf","file_size":570829,"creator":"cchlebak","checksum":"2149979c46964c4d117af06ccb6c0834","date_updated":"2021-11-12T11:41:56Z","access_level":"open_access","content_type":"application/pdf","relation":"main_file","file_id":"10278","date_created":"2021-11-12T11:41:56Z","success":1}],"article_number":"124","_id":"10190","date_published":"2019-10-10T00:00:00Z","abstract":[{"text":"The verification of concurrent programs remains an open challenge, as thread interaction has to be accounted for, which leads to state-space explosion. Stateless model checking battles this problem by exploring traces rather than states of the program. As there are exponentially many traces, dynamic partial-order reduction (DPOR) techniques are used to partition the trace space into equivalence classes, and explore a few representatives from each class. The standard equivalence that underlies most DPOR techniques is the happens-before equivalence, however recent works have spawned a vivid interest towards coarser equivalences. The efficiency of such approaches is a product of two parameters: (i) the size of the partitioning induced by the equivalence, and (ii) the time spent by the exploration algorithm in each class of the partitioning. In this work, we present a new equivalence, called value-happens-before and show that it has two appealing features. First, value-happens-before is always at least as coarse as the happens-before equivalence, and can be even exponentially coarser. Second, the value-happens-before partitioning is efficiently explorable when the number of threads is bounded. We present an algorithm called value-centric DPOR (VCDPOR), which explores the underlying partitioning using polynomial time per class. Finally, we perform an experimental evaluation of VCDPOR on various benchmarks, and compare it against other state-of-the-art approaches. Our results show that value-happens-before typically induces a significant reduction in the size of the underlying partitioning, which leads to a considerable reduction in the running time for exploring the whole partitioning.","lang":"eng"}],"date_updated":"2025-07-14T09:10:15Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","external_id":{"arxiv":["1909.00989"]},"publication_identifier":{"eissn":["2475-1421"]},"year":"2019","oa_version":"Published Version","has_accepted_license":"1","publisher":"ACM","quality_controlled":"1","department":[{"_id":"GradSch"},{"_id":"KrCh"}],"publication":"Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications","status":"public","intvolume":"         3","month":"10","date_created":"2021-10-27T14:57:06Z","acknowledgement":"The authors would also like to thank anonymous referees for their valuable comments and helpful suggestions. This work is supported by the Austrian Science Fund (FWF) NFN grants S11407-N23 (RiSE/SHiNE) and S11402-N23 (RiSE/SHiNE), by the Vienna Science and Technology Fund (WWTF) Project ICT15-003, and by the Austrian Science Fund (FWF) Schrodinger grant J-4220.\r\n","project":[{"_id":"25892FC0-B435-11E9-9278-68D0E5697425","name":"Efficient Algorithms for Computer Aided Verification","grant_number":"ICT15-003"},{"call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425","name":"Game Theory","grant_number":"S11407"},{"call_identifier":"FWF","_id":"25832EC2-B435-11E9-9278-68D0E5697425","name":"Rigorous Systems Engineering","grant_number":"S 11407_N23"},{"name":"Moderne Concurrency Paradigms","grant_number":"S11402-N23","call_identifier":"FWF","_id":"25F5A88A-B435-11E9-9278-68D0E5697425"}],"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"10199"}]},"language":[{"iso":"eng"}],"keyword":["safety","risk","reliability and quality","software"],"doi":"10.1145/3360550","ddc":["000"],"citation":{"short":"K. Chatterjee, A. Pavlogiannis, V. Toman, in:, Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications, ACM, 2019.","apa":"Chatterjee, K., Pavlogiannis, A., &#38; Toman, V. (2019). Value-centric dynamic partial order reduction. In <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i> (Vol. 3). Athens, Greece: ACM. <a href=\"https://doi.org/10.1145/3360550\">https://doi.org/10.1145/3360550</a>","ama":"Chatterjee K, Pavlogiannis A, Toman V. Value-centric dynamic partial order reduction. In: <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>. Vol 3. ACM; 2019. doi:<a href=\"https://doi.org/10.1145/3360550\">10.1145/3360550</a>","ieee":"K. Chatterjee, A. Pavlogiannis, and V. Toman, “Value-centric dynamic partial order reduction,” in <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>, Athens, Greece, 2019, vol. 3.","ista":"Chatterjee K, Pavlogiannis A, Toman V. 2019. Value-centric dynamic partial order reduction. Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications. OOPSLA: Object-oriented Programming, Systems, Languages and Applications vol. 3, 124.","chicago":"Chatterjee, Krishnendu, Andreas Pavlogiannis, and Viktor Toman. “Value-Centric Dynamic Partial Order Reduction.” In <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>, Vol. 3. ACM, 2019. <a href=\"https://doi.org/10.1145/3360550\">https://doi.org/10.1145/3360550</a>.","mla":"Chatterjee, Krishnendu, et al. “Value-Centric Dynamic Partial Order Reduction.” <i>Proceedings of the 34th ACM International Conference on Object-Oriented Programming, Systems, Languages, and Applications</i>, vol. 3, 124, ACM, 2019, doi:<a href=\"https://doi.org/10.1145/3360550\">10.1145/3360550</a>."},"conference":{"location":"Athens, Greece","end_date":"2019-10-25","start_date":"2019-10-23","name":"OOPSLA: Object-oriented Programming, Systems, Languages and Applications"},"title":"Value-centric dynamic partial order reduction","day":"10","author":[{"last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"id":"49704004-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8943-0722","last_name":"Pavlogiannis","full_name":"Pavlogiannis, Andreas","first_name":"Andreas"},{"id":"3AF3DA7C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9036-063X","full_name":"Toman, Viktor","first_name":"Viktor","last_name":"Toman"}],"type":"conference"},{"oa_version":"Published Version","has_accepted_license":"1","year":"2019","article_type":"original","publication_identifier":{"issn":["1741-7007"]},"scopus_import":"1","external_id":{"pmid":["31640700"]},"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_updated":"2021-11-26T11:54:29Z","article_processing_charge":"No","issue":"1","abstract":[{"text":"Background\r\nESCRT-III is a membrane remodelling filament with the unique ability to cut membranes from the inside of the membrane neck. It is essential for the final stage of cell division, the formation of vesicles, the release of viruses, and membrane repair. Distinct from other cytoskeletal filaments, ESCRT-III filaments do not consume energy themselves, but work in conjunction with another ATP-consuming complex. Despite rapid progress in describing the cell biology of ESCRT-III, we lack an understanding of the physical mechanisms behind its force production and membrane remodelling.\r\nResults\r\nHere we present a minimal coarse-grained model that captures all the experimentally reported cases of ESCRT-III driven membrane sculpting, including the formation of downward and upward cones and tubules. This model suggests that a change in the geometry of membrane bound ESCRT-III filaments—from a flat spiral to a 3D helix—drives membrane deformation. We then show that such repetitive filament geometry transitions can induce the fission of cargo-containing vesicles.\r\nConclusions\r\nOur model provides a general physical mechanism that explains the full range of ESCRT-III-dependent membrane remodelling and scission events observed in cells. This mechanism for filament force production is distinct from the mechanisms described for other cytoskeletal elements discovered so far. The mechanistic principles revealed here suggest new ways of manipulating ESCRT-III-driven processes in cells and could be used to guide the engineering of synthetic membrane-sculpting systems.","lang":"eng"}],"_id":"10354","date_published":"2019-10-22T00:00:00Z","file":[{"checksum":"31d8bae55a376d30925f53f7e1a02396","access_level":"open_access","date_updated":"2021-11-26T11:37:54Z","file_size":1648926,"creator":"cchlebak","file_name":"2019_BMCBio_Harker_Kirschneck.pdf","date_created":"2021-11-26T11:37:54Z","success":1,"file_id":"10356","relation":"main_file","content_type":"application/pdf"}],"article_number":"82","main_file_link":[{"url":"https://www.biorxiv.org/content/10.1101/559898","open_access":"1"}],"oa":1,"publication_status":"published","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":17,"file_date_updated":"2021-11-26T11:37:54Z","title":"Changes in ESCRT-III filament geometry drive membrane remodelling and fission in silico","citation":{"apa":"Harker-Kirschneck, L., Baum, B., &#38; Šarić, A. (2019). Changes in ESCRT-III filament geometry drive membrane remodelling and fission in silico. <i>BMC Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1186/s12915-019-0700-2\">https://doi.org/10.1186/s12915-019-0700-2</a>","ama":"Harker-Kirschneck L, Baum B, Šarić A. Changes in ESCRT-III filament geometry drive membrane remodelling and fission in silico. <i>BMC Biology</i>. 2019;17(1). doi:<a href=\"https://doi.org/10.1186/s12915-019-0700-2\">10.1186/s12915-019-0700-2</a>","short":"L. Harker-Kirschneck, B. Baum, A. Šarić, BMC Biology 17 (2019).","mla":"Harker-Kirschneck, Lena, et al. “Changes in ESCRT-III Filament Geometry Drive Membrane Remodelling and Fission in Silico.” <i>BMC Biology</i>, vol. 17, no. 1, 82, Springer Nature, 2019, doi:<a href=\"https://doi.org/10.1186/s12915-019-0700-2\">10.1186/s12915-019-0700-2</a>.","ista":"Harker-Kirschneck L, Baum B, Šarić A. 2019. Changes in ESCRT-III filament geometry drive membrane remodelling and fission in silico. BMC Biology. 17(1), 82.","ieee":"L. Harker-Kirschneck, B. Baum, and A. Šarić, “Changes in ESCRT-III filament geometry drive membrane remodelling and fission in silico,” <i>BMC Biology</i>, vol. 17, no. 1. Springer Nature, 2019.","chicago":"Harker-Kirschneck, Lena, Buzz Baum, and Anđela Šarić. “Changes in ESCRT-III Filament Geometry Drive Membrane Remodelling and Fission in Silico.” <i>BMC Biology</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1186/s12915-019-0700-2\">https://doi.org/10.1186/s12915-019-0700-2</a>."},"type":"journal_article","author":[{"last_name":"Harker-Kirschneck","first_name":"Lena","full_name":"Harker-Kirschneck, Lena"},{"first_name":"Buzz","full_name":"Baum, Buzz","last_name":"Baum"},{"orcid":"0000-0002-7854-2139","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","full_name":"Šarić, Anđela","first_name":"Anđela","last_name":"Šarić"}],"day":"22","pmid":1,"acknowledgement":"We thank Jeremy Carlton, Mike Staddon, Geraint Harker, and the Wellcome Trust Consortium “Archaeal Origins of Eukaryotic Cell Organisation” for fruitful conversations. We thank Peter Wirnsberger and Tine Curk for discussions about the membrane model implementation.","doi":"10.1186/s12915-019-0700-2","ddc":["570"],"keyword":["cell biology"],"language":[{"iso":"eng"}],"date_created":"2021-11-26T11:25:03Z","month":"10","extern":"1","publisher":"Springer Nature","status":"public","intvolume":"        17","publication":"BMC Biology","quality_controlled":"1"},{"citation":{"short":"A.E. Hafner, J. Krausser, A. Šarić, Current Opinion in Structural Biology 58 (2019) 43–52.","ama":"Hafner AE, Krausser J, Šarić A. Minimal coarse-grained models for molecular self-organisation in biology. <i>Current Opinion in Structural Biology</i>. 2019;58:43-52. doi:<a href=\"https://doi.org/10.1016/j.sbi.2019.05.018\">10.1016/j.sbi.2019.05.018</a>","apa":"Hafner, A. E., Krausser, J., &#38; Šarić, A. (2019). Minimal coarse-grained models for molecular self-organisation in biology. <i>Current Opinion in Structural Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.sbi.2019.05.018\">https://doi.org/10.1016/j.sbi.2019.05.018</a>","chicago":"Hafner, Anne E, Johannes Krausser, and Anđela Šarić. “Minimal Coarse-Grained Models for Molecular Self-Organisation in Biology.” <i>Current Opinion in Structural Biology</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.sbi.2019.05.018\">https://doi.org/10.1016/j.sbi.2019.05.018</a>.","ista":"Hafner AE, Krausser J, Šarić A. 2019. Minimal coarse-grained models for molecular self-organisation in biology. Current Opinion in Structural Biology. 58, 43–52.","ieee":"A. E. Hafner, J. Krausser, and A. Šarić, “Minimal coarse-grained models for molecular self-organisation in biology,” <i>Current Opinion in Structural Biology</i>, vol. 58. Elsevier, pp. 43–52, 2019.","mla":"Hafner, Anne E., et al. “Minimal Coarse-Grained Models for Molecular Self-Organisation in Biology.” <i>Current Opinion in Structural Biology</i>, vol. 58, Elsevier, 2019, pp. 43–52, doi:<a href=\"https://doi.org/10.1016/j.sbi.2019.05.018\">10.1016/j.sbi.2019.05.018</a>."},"title":"Minimal coarse-grained models for molecular self-organisation in biology","day":"18","type":"journal_article","author":[{"last_name":"Hafner","full_name":"Hafner, Anne E","first_name":"Anne E"},{"full_name":"Krausser, Johannes","first_name":"Johannes","last_name":"Krausser"},{"first_name":"Anđela","full_name":"Šarić, Anđela","last_name":"Šarić","orcid":"0000-0002-7854-2139","id":"bf63d406-f056-11eb-b41d-f263a6566d8b"}],"pmid":1,"acknowledgement":"We acknowledge funding from EPSRC (A.E.H. and A.Š.), the Academy of Medical Sciences (J.K. and A.Š.), the Wellcome Trust (J.K. and A.Š.), and the Royal Society (A.Š.). We thank Shiladitya Banerjee and Nikola Ojkic for critically reading the manuscript, and Claudia Flandoli for helping us with figures and illustrations.","keyword":["molecular biology","structural biology"],"language":[{"iso":"eng"}],"doi":"10.1016/j.sbi.2019.05.018","page":"43-52","month":"06","extern":"1","date_created":"2021-11-26T11:33:21Z","publisher":"Elsevier","publication":"Current Opinion in Structural Biology","quality_controlled":"1","intvolume":"        58","status":"public","article_type":"original","year":"2019","oa_version":"Preprint","external_id":{"pmid":["31226513"]},"scopus_import":"1","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_updated":"2021-11-26T11:54:25Z","publication_identifier":{"issn":["0959-440X"]},"article_processing_charge":"No","_id":"10355","date_published":"2019-06-18T00:00:00Z","abstract":[{"lang":"eng","text":"The molecular machinery of life is largely created via self-organisation of individual molecules into functional assemblies. Minimal coarse-grained models, in which a whole macromolecule is represented by a small number of particles, can be of great value in identifying the main driving forces behind self-organisation in cell biology. Such models can incorporate data from both molecular and continuum scales, and their results can be directly compared to experiments. Here we review the state of the art of models for studying the formation and biological function of macromolecular assemblies in living organisms. We outline the key ingredients of each model and their main findings. We illustrate the contribution of this class of simulations to identifying the physical mechanisms behind life and diseases, and discuss their future developments."}],"publication_status":"published","main_file_link":[{"url":"https://arxiv.org/abs/1906.09349","open_access":"1"}],"oa":1,"volume":58},{"oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41431-018-0231-2"}],"publication_status":"published","volume":27,"article_processing_charge":"No","date_published":"2019-01-01T00:00:00Z","_id":"105","abstract":[{"lang":"eng","text":"Clinical Utility Gene Card. 1. Name of Disease (Synonyms): Pontocerebellar hypoplasia type 9 (PCH9) and spastic paraplegia-63 (SPG63). 2. OMIM# of the Disease: 615809 and 615686. 3. Name of the Analysed Genes or DNA/Chromosome Segments: AMPD2 at 1p13.3. 4. OMIM# of the Gene(s): 102771."}],"external_id":{"pmid":["30089829"],"isi":["000454111500019"]},"scopus_import":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-24T14:28:24Z","oa_version":"Published Version","year":"2019","article_type":"original","publist_id":"7949","isi":1,"publisher":"Springer Nature","intvolume":"        27","status":"public","publication":"European Journal of Human Genetics","quality_controlled":"1","department":[{"_id":"GaNo"}],"page":"161-166","date_created":"2018-12-11T11:44:39Z","month":"01","pmid":1,"acknowledgement":"This work was supported by EuroGentest2 (Unit 2: “Genetic testing as part of health care”), a Coordination Action under FP7 (Grant Agreement Number 261469) and the European Society of Human Genetics. We acknowledge the participation of the patients and their families in these studies, as well as the generous financial support of the Lefroy and Handbury families. APLM was supported by an Australian Postgraduate Award. PJL is supported by an NHMRC Career Development Fellowship (GNT1032364). RJL is supported by a Melbourne Children’s Clinician Scientist Fellowship.","doi":"10.1038/s41431-018-0231-2","language":[{"iso":"eng"}],"title":"CUGC for pontocerebellar hypoplasia type 9 and spastic paraplegia-63","citation":{"apa":"Marsh, A., Novarino, G., Lockhart, P., &#38; Leventer, R. (2019). CUGC for pontocerebellar hypoplasia type 9 and spastic paraplegia-63. <i>European Journal of Human Genetics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41431-018-0231-2\">https://doi.org/10.1038/s41431-018-0231-2</a>","ama":"Marsh A, Novarino G, Lockhart P, Leventer R. CUGC for pontocerebellar hypoplasia type 9 and spastic paraplegia-63. <i>European Journal of Human Genetics</i>. 2019;27:161-166. doi:<a href=\"https://doi.org/10.1038/s41431-018-0231-2\">10.1038/s41431-018-0231-2</a>","short":"A. Marsh, G. Novarino, P. Lockhart, R. Leventer, European Journal of Human Genetics 27 (2019) 161–166.","mla":"Marsh, Ashley, et al. “CUGC for Pontocerebellar Hypoplasia Type 9 and Spastic Paraplegia-63.” <i>European Journal of Human Genetics</i>, vol. 27, Springer Nature, 2019, pp. 161–66, doi:<a href=\"https://doi.org/10.1038/s41431-018-0231-2\">10.1038/s41431-018-0231-2</a>.","ieee":"A. Marsh, G. Novarino, P. Lockhart, and R. Leventer, “CUGC for pontocerebellar hypoplasia type 9 and spastic paraplegia-63,” <i>European Journal of Human Genetics</i>, vol. 27. Springer Nature, pp. 161–166, 2019.","ista":"Marsh A, Novarino G, Lockhart P, Leventer R. 2019. CUGC for pontocerebellar hypoplasia type 9 and spastic paraplegia-63. European Journal of Human Genetics. 27, 161–166.","chicago":"Marsh, Ashley, Gaia Novarino, Paul Lockhart, and Richard Leventer. “CUGC for Pontocerebellar Hypoplasia Type 9 and Spastic Paraplegia-63.” <i>European Journal of Human Genetics</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1038/s41431-018-0231-2\">https://doi.org/10.1038/s41431-018-0231-2</a>."},"type":"journal_article","author":[{"full_name":"Marsh, Ashley","first_name":"Ashley","last_name":"Marsh"},{"full_name":"Novarino, Gaia","first_name":"Gaia","last_name":"Novarino","id":"3E57A680-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7673-7178"},{"full_name":"Lockhart, Paul","first_name":"Paul","last_name":"Lockhart"},{"last_name":"Leventer","full_name":"Leventer, Richard","first_name":"Richard"}],"day":"01"},{"page":"900-903","extern":"1","month":"12","date_created":"2022-01-13T14:21:32Z","publisher":"American Association for the Advancement of Science","quality_controlled":"1","publication":"Science","status":"public","intvolume":"       367","citation":{"ama":"Serlin M, Tschirhart CL, Polshyn H, et al. Intrinsic quantized anomalous Hall effect in a moiré heterostructure. <i>Science</i>. 2019;367(6480):900-903. doi:<a href=\"https://doi.org/10.1126/science.aay5533\">10.1126/science.aay5533</a>","apa":"Serlin, M., Tschirhart, C. L., Polshyn, H., Zhang, Y., Zhu, J., Watanabe, K., … Young, A. F. (2019). Intrinsic quantized anomalous Hall effect in a moiré heterostructure. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.aay5533\">https://doi.org/10.1126/science.aay5533</a>","short":"M. Serlin, C.L. Tschirhart, H. Polshyn, Y. Zhang, J. Zhu, K. Watanabe, T. Taniguchi, L. Balents, A.F. Young, Science 367 (2019) 900–903.","mla":"Serlin, M., et al. “Intrinsic Quantized Anomalous Hall Effect in a Moiré Heterostructure.” <i>Science</i>, vol. 367, no. 6480, American Association for the Advancement of Science, 2019, pp. 900–03, doi:<a href=\"https://doi.org/10.1126/science.aay5533\">10.1126/science.aay5533</a>.","chicago":"Serlin, M., C. L. Tschirhart, Hryhoriy Polshyn, Y. Zhang, J. Zhu, K. Watanabe, T. Taniguchi, L. Balents, and A. F. Young. “Intrinsic Quantized Anomalous Hall Effect in a Moiré Heterostructure.” <i>Science</i>. American Association for the Advancement of Science, 2019. <a href=\"https://doi.org/10.1126/science.aay5533\">https://doi.org/10.1126/science.aay5533</a>.","ieee":"M. Serlin <i>et al.</i>, “Intrinsic quantized anomalous Hall effect in a moiré heterostructure,” <i>Science</i>, vol. 367, no. 6480. American Association for the Advancement of Science, pp. 900–903, 2019.","ista":"Serlin M, Tschirhart CL, Polshyn H, Zhang Y, Zhu J, Watanabe K, Taniguchi T, Balents L, Young AF. 2019. Intrinsic quantized anomalous Hall effect in a moiré heterostructure. Science. 367(6480), 900–903."},"title":"Intrinsic quantized anomalous Hall effect in a moiré heterostructure","day":"19","type":"journal_article","author":[{"first_name":"M.","full_name":"Serlin, M.","last_name":"Serlin"},{"first_name":"C. L.","full_name":"Tschirhart, C. L.","last_name":"Tschirhart"},{"last_name":"Polshyn","first_name":"Hryhoriy","full_name":"Polshyn, Hryhoriy","orcid":"0000-0001-8223-8896","id":"edfc7cb1-526e-11ec-b05a-e6ecc27e4e48"},{"full_name":"Zhang, Y.","first_name":"Y.","last_name":"Zhang"},{"last_name":"Zhu","first_name":"J.","full_name":"Zhu, J."},{"first_name":"K.","full_name":"Watanabe, K.","last_name":"Watanabe"},{"full_name":"Taniguchi, T.","first_name":"T.","last_name":"Taniguchi"},{"full_name":"Balents, L.","first_name":"L.","last_name":"Balents"},{"last_name":"Young","full_name":"Young, A. F.","first_name":"A. F."}],"acknowledgement":"The authors acknowledge discussions with A. Macdonald, Y. Saito, and M. Zaletel.","pmid":1,"related_material":{"record":[{"relation":"other","id":"10697","status":"public"},{"relation":"other","id":"10698","status":"public"},{"status":"public","relation":"other","id":"10699"}]},"language":[{"iso":"eng"}],"keyword":["multidisciplinary"],"doi":"10.1126/science.aay5533","arxiv":1,"issue":"6480","article_processing_charge":"No","abstract":[{"lang":"eng","text":"The quantum anomalous Hall (QAH) effect combines topology and magnetism to produce precisely quantized Hall resistance at zero magnetic field. We report the observation of a QAH effect in twisted bilayer graphene aligned to hexagonal boron nitride. The effect is driven by intrinsic strong interactions, which polarize the electrons into a single spin- and valley-resolved moiré miniband with Chern number C = 1. In contrast to magnetically doped systems, the measured transport energy gap is larger than the Curie temperature for magnetic ordering, and quantization to within 0.1% of the von Klitzing constant persists to temperatures of several kelvin at zero magnetic field. Electrical currents as small as 1 nanoampere controllably switch the magnetic order between states of opposite polarization, forming an electrically rewritable magnetic memory."}],"_id":"10619","date_published":"2019-12-19T00:00:00Z","publication_status":"published","oa":1,"main_file_link":[{"url":"https://arxiv.org/abs/1907.00261","open_access":"1"}],"volume":367,"article_type":"original","oa_version":"Preprint","year":"2019","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_updated":"2023-02-21T16:00:09Z","external_id":{"pmid":["31857492"],"arxiv":["1907.00261"]},"scopus_import":"1","publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]}},{"page":"154-158","month":"12","extern":"1","date_created":"2022-01-13T14:45:16Z","publisher":"Springer Nature","publication":"Nature Physics","quality_controlled":"1","intvolume":"        16","status":"public","citation":{"mla":"Zhou, H., et al. “Solids of Quantum Hall Skyrmions in Graphene.” <i>Nature Physics</i>, vol. 16, no. 2, Springer Nature, 2019, pp. 154–58, doi:<a href=\"https://doi.org/10.1038/s41567-019-0729-8\">10.1038/s41567-019-0729-8</a>.","chicago":"Zhou, H., Hryhoriy Polshyn, T. Taniguchi, K. Watanabe, and A. F. Young. “Solids of Quantum Hall Skyrmions in Graphene.” <i>Nature Physics</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1038/s41567-019-0729-8\">https://doi.org/10.1038/s41567-019-0729-8</a>.","ista":"Zhou H, Polshyn H, Taniguchi T, Watanabe K, Young AF. 2019. Solids of quantum Hall skyrmions in graphene. Nature Physics. 16(2), 154–158.","ieee":"H. Zhou, H. Polshyn, T. Taniguchi, K. Watanabe, and A. F. Young, “Solids of quantum Hall skyrmions in graphene,” <i>Nature Physics</i>, vol. 16, no. 2. Springer Nature, pp. 154–158, 2019.","ama":"Zhou H, Polshyn H, Taniguchi T, Watanabe K, Young AF. Solids of quantum Hall skyrmions in graphene. <i>Nature Physics</i>. 2019;16(2):154-158. doi:<a href=\"https://doi.org/10.1038/s41567-019-0729-8\">10.1038/s41567-019-0729-8</a>","apa":"Zhou, H., Polshyn, H., Taniguchi, T., Watanabe, K., &#38; Young, A. F. (2019). Solids of quantum Hall skyrmions in graphene. <i>Nature Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41567-019-0729-8\">https://doi.org/10.1038/s41567-019-0729-8</a>","short":"H. Zhou, H. Polshyn, T. Taniguchi, K. Watanabe, A.F. Young, Nature Physics 16 (2019) 154–158."},"title":"Solids of quantum Hall skyrmions in graphene","day":"16","author":[{"full_name":"Zhou, H.","first_name":"H.","last_name":"Zhou"},{"orcid":"0000-0001-8223-8896","id":"edfc7cb1-526e-11ec-b05a-e6ecc27e4e48","last_name":"Polshyn","first_name":"Hryhoriy","full_name":"Polshyn, Hryhoriy"},{"last_name":"Taniguchi","first_name":"T.","full_name":"Taniguchi, T."},{"first_name":"K.","full_name":"Watanabe, K.","last_name":"Watanabe"},{"first_name":"A. F.","full_name":"Young, A. F.","last_name":"Young"}],"type":"journal_article","acknowledgement":"We acknowledge discussions with B. Halperin, C. Huang, A. Macdonald and M. Zalatel. Experimental work at UCSB was supported by the Army Research Office under awards nos. MURI W911NF-16-1-0361 and W911NF-16-1-0482. K.W. and T.T. acknowledge support from the Elemental Strategy Initiative conducted by MEXT (Japan) and CREST (JPMJCR15F3), JST. A.F.Y. acknowledges the support of the David and Lucile Packard Foundation and and Alfred. P. Sloan Foundation.","keyword":["General Physics and Astronomy"],"language":[{"iso":"eng"}],"doi":"10.1038/s41567-019-0729-8","article_processing_charge":"No","issue":"2","abstract":[{"text":"Partially filled Landau levels host competing electronic orders. For example, electron solids may prevail close to integer filling of the Landau levels before giving way to fractional quantum Hall liquids at higher carrier density1,2. Here, we report the observation of an electron solid with non-collinear spin texture in monolayer graphene, consistent with solidification of skyrmions3—topological spin textures characterized by quantized electrical charge4,5. We probe the spin texture of the solids using a modified Corbino geometry that allows ferromagnetic magnons to be launched and detected6,7. We find that magnon transport is highly efficient when one Landau level is filled (ν=1), consistent with quantum Hall ferromagnetic spin polarization. However, even minimal doping immediately quenches the magnon signal while leaving the vanishing low-temperature charge conductivity unchanged. Our results can be understood by the formation of a solid of charged skyrmions near ν=1, whose non-collinear spin texture leads to rapid magnon decay. Data near fractional fillings show evidence of several fractional skyrmion solids, suggesting that graphene hosts a highly tunable landscape of coupled spin and charge orders.","lang":"eng"}],"_id":"10620","date_published":"2019-12-16T00:00:00Z","publication_status":"published","volume":16,"article_type":"original","year":"2019","oa_version":"None","scopus_import":"1","user_id":"ea97e931-d5af-11eb-85d4-e6957dddbf17","date_updated":"2022-01-13T15:34:44Z","publication_identifier":{"eissn":["1745-2481"],"issn":["1745-2473"]}},{"quality_controlled":"1","publication":"Nature Physics","intvolume":"        15","status":"public","publisher":"Springer Nature","extern":"1","month":"08","date_created":"2022-01-13T15:00:58Z","page":"1011-1016","language":[{"iso":"eng"}],"keyword":["general physics and astronomy"],"doi":"10.1038/s41567-019-0596-3","acknowledgement":"The authors thank S. Das Sarma and F. Wu for sharing their unpublished theoretical results, and acknowledge further discussions with L. Balents and T. Senthil. Work at both Columbia and UCSB was funded by the Army Research Office under award W911NF-17-1-0323. Sample device design and fabrication was partially supported by DoE Pro-QM EFRC (DE-SC0019443). A.F.Y. and C.R.D. separately acknowledge the support of the David and Lucile Packard Foundation. K.W. and T.T. acknowledge support from the Elemental Strategy Initiative conducted by the MEXT, Japan and the CREST (JPMJCR15F3), JST. A portion of this work was carried out at the KITP, Santa Barbara, supported by the National Science Foundation under grant number NSF PHY-1748958.","day":"05","author":[{"first_name":"Hryhoriy","full_name":"Polshyn, Hryhoriy","last_name":"Polshyn","id":"edfc7cb1-526e-11ec-b05a-e6ecc27e4e48","orcid":"0000-0001-8223-8896"},{"last_name":"Yankowitz","first_name":"Matthew","full_name":"Yankowitz, Matthew"},{"last_name":"Chen","full_name":"Chen, Shaowen","first_name":"Shaowen"},{"full_name":"Zhang, Yuxuan","first_name":"Yuxuan","last_name":"Zhang"},{"first_name":"K.","full_name":"Watanabe, K.","last_name":"Watanabe"},{"full_name":"Taniguchi, T.","first_name":"T.","last_name":"Taniguchi"},{"last_name":"Dean","first_name":"Cory R.","full_name":"Dean, Cory R."},{"last_name":"Young","first_name":"Andrea F.","full_name":"Young, Andrea F."}],"type":"journal_article","citation":{"short":"H. Polshyn, M. Yankowitz, S. Chen, Y. Zhang, K. Watanabe, T. Taniguchi, C.R. Dean, A.F. Young, Nature Physics 15 (2019) 1011–1016.","apa":"Polshyn, H., Yankowitz, M., Chen, S., Zhang, Y., Watanabe, K., Taniguchi, T., … Young, A. F. (2019). Large linear-in-temperature resistivity in twisted bilayer graphene. <i>Nature Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41567-019-0596-3\">https://doi.org/10.1038/s41567-019-0596-3</a>","ama":"Polshyn H, Yankowitz M, Chen S, et al. Large linear-in-temperature resistivity in twisted bilayer graphene. <i>Nature Physics</i>. 2019;15(10):1011-1016. doi:<a href=\"https://doi.org/10.1038/s41567-019-0596-3\">10.1038/s41567-019-0596-3</a>","ista":"Polshyn H, Yankowitz M, Chen S, Zhang Y, Watanabe K, Taniguchi T, Dean CR, Young AF. 2019. Large linear-in-temperature resistivity in twisted bilayer graphene. Nature Physics. 15(10), 1011–1016.","ieee":"H. Polshyn <i>et al.</i>, “Large linear-in-temperature resistivity in twisted bilayer graphene,” <i>Nature Physics</i>, vol. 15, no. 10. Springer Nature, pp. 1011–1016, 2019.","chicago":"Polshyn, Hryhoriy, Matthew Yankowitz, Shaowen Chen, Yuxuan Zhang, K. Watanabe, T. Taniguchi, Cory R. Dean, and Andrea F. Young. “Large Linear-in-Temperature Resistivity in Twisted Bilayer Graphene.” <i>Nature Physics</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1038/s41567-019-0596-3\">https://doi.org/10.1038/s41567-019-0596-3</a>.","mla":"Polshyn, Hryhoriy, et al. “Large Linear-in-Temperature Resistivity in Twisted Bilayer Graphene.” <i>Nature Physics</i>, vol. 15, no. 10, Springer Nature, 2019, pp. 1011–16, doi:<a href=\"https://doi.org/10.1038/s41567-019-0596-3\">10.1038/s41567-019-0596-3</a>."},"title":"Large linear-in-temperature resistivity in twisted bilayer graphene","volume":15,"publication_status":"published","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1902.00763"}],"oa":1,"_id":"10621","abstract":[{"lang":"eng","text":"Twisted bilayer graphene has recently emerged as a platform for hosting correlated phenomena. For twist angles near θ ≈ 1.1°, the low-energy electronic structure of twisted bilayer graphene features isolated bands with a flat dispersion1,2. Recent experiments have observed a variety of low-temperature phases that appear to be driven by electron interactions, including insulating states, superconductivity and magnetism3,4,5,6. Here we report electrical transport measurements up to room temperature for twist angles varying between 0.75° and 2°. We find that the resistivity, ρ, scales linearly with temperature, T, over a wide range of T before falling again owing to interband activation. The T-linear response is much larger than observed in monolayer graphene for all measured devices, and in particular increases by more than three orders of magnitude in the range where the flat band exists. Our results point to the dominant role of electron–phonon scattering in twisted bilayer graphene, with possible implications for the origin of the observed superconductivity."}],"date_published":"2019-08-05T00:00:00Z","arxiv":1,"issue":"10","article_processing_charge":"No","user_id":"ea97e931-d5af-11eb-85d4-e6957dddbf17","date_updated":"2022-01-20T09:33:38Z","external_id":{"arxiv":["1902.00763"]},"scopus_import":"1","publication_identifier":{"issn":["1745-2473"],"eissn":["1745-2481"]},"article_type":"original","year":"2019","oa_version":"Preprint"},{"day":"27","author":[{"full_name":"Polshyn, Hryhoriy","first_name":"Hryhoriy","last_name":"Polshyn","id":"edfc7cb1-526e-11ec-b05a-e6ecc27e4e48","orcid":"0000-0001-8223-8896"},{"last_name":"Naibert","first_name":"Tyler","full_name":"Naibert, Tyler"},{"last_name":"Budakian","first_name":"Raffi","full_name":"Budakian, Raffi"}],"type":"journal_article","citation":{"ieee":"H. Polshyn, T. Naibert, and R. Budakian, “Manipulating multivortex states in superconducting structures,” <i>Nano Letters</i>, vol. 19, no. 8. American Chemical Society, pp. 5476–5482, 2019.","ista":"Polshyn H, Naibert T, Budakian R. 2019. Manipulating multivortex states in superconducting structures. Nano Letters. 19(8), 5476–5482.","chicago":"Polshyn, Hryhoriy, Tyler Naibert, and Raffi Budakian. “Manipulating Multivortex States in Superconducting Structures.” <i>Nano Letters</i>. American Chemical Society, 2019. <a href=\"https://doi.org/10.1021/acs.nanolett.9b01983\">https://doi.org/10.1021/acs.nanolett.9b01983</a>.","mla":"Polshyn, Hryhoriy, et al. “Manipulating Multivortex States in Superconducting Structures.” <i>Nano Letters</i>, vol. 19, no. 8, American Chemical Society, 2019, pp. 5476–82, doi:<a href=\"https://doi.org/10.1021/acs.nanolett.9b01983\">10.1021/acs.nanolett.9b01983</a>.","short":"H. Polshyn, T. Naibert, R. Budakian, Nano Letters 19 (2019) 5476–5482.","apa":"Polshyn, H., Naibert, T., &#38; Budakian, R. (2019). Manipulating multivortex states in superconducting structures. <i>Nano Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.nanolett.9b01983\">https://doi.org/10.1021/acs.nanolett.9b01983</a>","ama":"Polshyn H, Naibert T, Budakian R. Manipulating multivortex states in superconducting structures. <i>Nano Letters</i>. 2019;19(8):5476-5482. doi:<a href=\"https://doi.org/10.1021/acs.nanolett.9b01983\">10.1021/acs.nanolett.9b01983</a>"},"title":"Manipulating multivortex states in superconducting structures","keyword":["mechanical engineering","condensed matter physics","general materials science","general chemistry","bioengineering"],"language":[{"iso":"eng"}],"doi":"10.1021/acs.nanolett.9b01983","pmid":1,"acknowledgement":"We are grateful to Nadya Mason, Taylor Hughes, and Alexey Bezryadin for useful discussions. This work was supported by the DOE Basic Energy Sciences under DE-SC0012649 and the Department of Physics and the Frederick Seitz Materials Research Laboratory Central Facilities at the University of Illinois.","month":"06","extern":"1","date_created":"2022-01-13T15:11:14Z","page":"5476-5482","publication":"Nano Letters","quality_controlled":"1","intvolume":"        19","status":"public","publisher":"American Chemical Society","article_type":"original","oa_version":"Preprint","year":"2019","external_id":{"arxiv":["1905.06303"],"pmid":["31246034"]},"scopus_import":"1","user_id":"ea97e931-d5af-11eb-85d4-e6957dddbf17","date_updated":"2022-01-13T15:41:24Z","publication_identifier":{"eissn":["1530-6992"],"issn":["1530-6984"]},"_id":"10622","abstract":[{"text":"We demonstrate a method for manipulating small ensembles of vortices in multiply connected superconducting structures. A micron-size magnetic particle attached to the tip of a silicon cantilever is used to locally apply magnetic flux through the superconducting structure. By scanning the tip over the surface of the device and by utilizing the dynamical coupling between the vortices and the cantilever, a high-resolution spatial map of the different vortex configurations is obtained. Moving the tip to a particular location in the map stabilizes a distinct multivortex configuration. Thus, the scanning of the tip over a particular trajectory in space permits nontrivial operations to be performed, such as braiding of individual vortices within a larger vortex ensemble—a key capability required by many proposals for topological quantum computing.","lang":"eng"}],"date_published":"2019-06-27T00:00:00Z","arxiv":1,"article_processing_charge":"No","issue":"8","volume":19,"publication_status":"published","oa":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1905.06303"}]},{"article_type":"original","year":"2019","oa_version":"Preprint","scopus_import":"1","external_id":{"pmid":["30679385 "],"arxiv":["1808.07865"]},"date_updated":"2022-01-14T13:48:32Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]},"arxiv":1,"article_processing_charge":"No","issue":"6431","date_published":"2019-01-24T00:00:00Z","_id":"10625","abstract":[{"lang":"eng","text":"The discovery of superconductivity and exotic insulating phases in twisted bilayer graphene has established this material as a model system of strongly correlated electrons. To achieve superconductivity, the two layers of graphene need to be at a very precise angle with respect to each other. Yankowitz et al. now show that another experimental knob, hydrostatic pressure, can be used to tune the phase diagram of twisted bilayer graphene (see the Perspective by Feldman). Applying pressure increased the coupling between the layers, which shifted the superconducting transition to higher angles and somewhat higher temperatures."}],"publication_status":"published","oa":1,"main_file_link":[{"url":"https://arxiv.org/abs/1808.07865","open_access":"1"}],"volume":363,"citation":{"ama":"Yankowitz M, Chen S, Polshyn H, et al. Tuning superconductivity in twisted bilayer graphene. <i>Science</i>. 2019;363(6431):1059-1064. doi:<a href=\"https://doi.org/10.1126/science.aav1910\">10.1126/science.aav1910</a>","apa":"Yankowitz, M., Chen, S., Polshyn, H., Zhang, Y., Watanabe, K., Taniguchi, T., … Dean, C. R. (2019). Tuning superconductivity in twisted bilayer graphene. <i>Science</i>. American Association for the Advancement of Science (AAAS). <a href=\"https://doi.org/10.1126/science.aav1910\">https://doi.org/10.1126/science.aav1910</a>","short":"M. Yankowitz, S. Chen, H. Polshyn, Y. Zhang, K. Watanabe, T. Taniguchi, D. Graf, A.F. Young, C.R. Dean, Science 363 (2019) 1059–1064.","mla":"Yankowitz, Matthew, et al. “Tuning Superconductivity in Twisted Bilayer Graphene.” <i>Science</i>, vol. 363, no. 6431, American Association for the Advancement of Science (AAAS), 2019, pp. 1059–64, doi:<a href=\"https://doi.org/10.1126/science.aav1910\">10.1126/science.aav1910</a>.","chicago":"Yankowitz, Matthew, Shaowen Chen, Hryhoriy Polshyn, Yuxuan Zhang, K. Watanabe, T. Taniguchi, David Graf, Andrea F. Young, and Cory R. Dean. “Tuning Superconductivity in Twisted Bilayer Graphene.” <i>Science</i>. American Association for the Advancement of Science (AAAS), 2019. <a href=\"https://doi.org/10.1126/science.aav1910\">https://doi.org/10.1126/science.aav1910</a>.","ista":"Yankowitz M, Chen S, Polshyn H, Zhang Y, Watanabe K, Taniguchi T, Graf D, Young AF, Dean CR. 2019. Tuning superconductivity in twisted bilayer graphene. Science. 363(6431), 1059–1064.","ieee":"M. Yankowitz <i>et al.</i>, “Tuning superconductivity in twisted bilayer graphene,” <i>Science</i>, vol. 363, no. 6431. American Association for the Advancement of Science (AAAS), pp. 1059–1064, 2019."},"title":"Tuning superconductivity in twisted bilayer graphene","day":"24","type":"journal_article","author":[{"first_name":"Matthew","full_name":"Yankowitz, Matthew","last_name":"Yankowitz"},{"last_name":"Chen","full_name":"Chen, Shaowen","first_name":"Shaowen"},{"orcid":"0000-0001-8223-8896","id":"edfc7cb1-526e-11ec-b05a-e6ecc27e4e48","full_name":"Polshyn, Hryhoriy","first_name":"Hryhoriy","last_name":"Polshyn"},{"full_name":"Zhang, Yuxuan","first_name":"Yuxuan","last_name":"Zhang"},{"last_name":"Watanabe","first_name":"K.","full_name":"Watanabe, K."},{"first_name":"T.","full_name":"Taniguchi, T.","last_name":"Taniguchi"},{"last_name":"Graf","first_name":"David","full_name":"Graf, David"},{"full_name":"Young, Andrea F.","first_name":"Andrea F.","last_name":"Young"},{"last_name":"Dean","first_name":"Cory R.","full_name":"Dean, Cory R."}],"pmid":1,"acknowledgement":"We thank J. Zhu and H. Zhou for experimental assistance and D. Shahar, A. Millis, O. Vafek, M. Zaletel, L. Balents, C. Xu, A. Bernevig, L. Fu, M. Koshino, and P. Moon for helpful discussions.","keyword":["multidisciplinary"],"language":[{"iso":"eng"}],"doi":"10.1126/science.aav1910","page":"1059-1064","month":"01","extern":"1","date_created":"2022-01-14T12:14:58Z","publisher":"American Association for the Advancement of Science (AAAS)","publication":"Science","quality_controlled":"1","intvolume":"       363","status":"public"}]